Open data resources in the biomedical domain

Latest Version

Version
0.2.3
Update
June 20, 2022
Size
895KiB
Developer
Category
Users
225
Rating
5 ★
Manifest Version
3
Web Store Status
Languages Support
English
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Permissions
Storage
ContextMenus
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FAIR-biomed Extension

Vasts amounts of biomedical data are stored in open databases and knowledge-bases. Data in these resources are intended to be findable, accessible, interoperable, and reusable (FAIR). However, integrating relevant parts within a specific project can be a challenge. FAIR-biomed works inside the browser to bring open data directly to specific research situations.

On any page in the browser, highlight some text. Press Ctr+Shift+Z or open a context menu (right-click) and select FAIR-biomed. A new box should appear prompting you to choose a data source to query.

Starting from a gene name, for example, you can fetch a general summary from NCBI Gene, related publications from PubMed or Europe PMC, mouse phenotypes from the International Mouse Phenotyping Consortium, or pathways from Reactome. The extension provides links to 20+ resources.
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Source Manifest.json

{"update_url": "https://clients2.google.com/service/update2/crx", "name": "FAIR-biomed", "short_name": "FAIR-biomed", "version": "0.2.3", "description": "Open data resources in the biomedical domain", "permissions": ["storage", "contextMenus"], "web_accessible_resources": [ { "resources": [ "library/logo/*", "resources/fa/*", "resources/images/*" ], "matches": [ "" ] } ], "background": { "service_worker": "service_worker.js" }, "content_scripts": [{ "matches": [""], "css": ["css/fair.css"], "js": ["resources/bundle.js", "js/common.js", "js/content.js"] }], "options_page": "html/options.html", "action": { "default_popup": "html/popup.html", "default_action": { "32": "resources/images/fair-biomed-32.png", "128": "resources/images/fair-biomed-128.png" } }, "icons": { "32": "resources/images/fair-biomed-32.png", "128": "resources/images/fair-biomed-128.png" }, "manifest_version": 3}
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How to download and manually install FAIR-biomed extension for Chrome

Looking for a way to install FAIR-biomed extensions for Chrome, you can search for them in the Chrome Web Store, clicking the "Add to Chrome" button, and following the straightforward process.

However, you may need to install FAIR-biomed extensions manually, this article outlines two simple methods to effortlessly install FAIR-biomed extensions, whether they come as unpacked folders in compressed formats like .zip or as .crx files.

Method 1: Download FAIR-biomed extension and manually install through Drag &Drop

If you ever need to manually install a FAIR-biomed extension for Chrome, don't worry, it's a simple process. Just follow these easy steps, and you will have your extension ready to use in no time.

Step 1: Download the FAIR-biomed Extension by clicking the "Download CRX" button on the website.

Look for the FAIR-biomed extension you wish to install. Go to the website and download the FAIR-biomed extension package, which is usually a .CRX file and comes in a zipped file. Here ".crx" file is the format for FAIR-biomed extension that contains all the data.

Step 2: Extract &Arrange Files

Once the file is downloaded, extract that file into its own folder. Similarly, give that extension files a permanent home. In other words, keep it in a folder that you don't accidentally delete it because these files will be needed to make that extension work.

Step 3: Go to the Chrome Extensions Page

Open Google Chrome and in the address bar, type chrome://extensions; it will open the Google Chrome extensions page. Make sure that "My extensions" is selected in the sidebar.

Step 4: Drag and Drop the Extension

Now, go to the folder where you extracted the FAIR-biomed extension and drag &drop the extension file from there anywhere onto the extension page within Google Chrome.

Step 5: Complete the Installation

Once you drag and drop the extension file, follow the steps that Google Chrome takes you through. Similarly, if the extension file is of .crx file format, you will be required to review the permissions and then add the extension.

Now, you can manage that added extension as you would like to with any other Chrome extension that you added through Chrome Webstore. Its icon will also appear in the Google Chrome Menu on the right side of the address bar once you activate it.

Method 2: Download FAIR-biomed extension for Chrome and install in Developer Mode

This is another method to install FAIR-biomed extension manually, but the twist is that here, you install by enabling the developer mode option provided in Google Chrome. This mode is commonly used for testing extensions or running unpublished tools.

Step 1: Download the FAIR-biomed extension file

Select and download the FAIR-biomed extension by clicking the 'Download CRX' button on the website.

Step 2: Extract the downloaded contents

Convert the file to a ZIP file if it is in CRX format then extract the FAIR-biomed extension zip file or folder that you downloaded. Make sure you extract it using the same folder name and keep it safely in another folder, so you don't delete it by mistake. The extracted folder will be needed to keep your FAIR-biomed extension running.

Step 3: Open Chrome Extension Setting Page

In the address bar of Google Chrome, type chrome://extensions and open the Chrome Extension Page.

Step 4: Enable Developer Mode

After opening the Chrome Extension page, look at the top right side, and you will find the toggle option of "Developer mode."Simply enable that developer mode option.

Step 5: Load the Unpacked Extension

Once you enable the developer mode option, you will see the menu of Load Unpacked, Pack Extensions and Update. From that, select the option "Load unpacked."

Step 6: Select the Extension Folder

Once the pop-up opens upon clicking Load unpacked, select the FAIR-biomed extension directory and click on the "Select Folder "button.

Step 7: Confirm and Install

After you select an extension folder of a Google Chrome extension you're installing manually, confirm its installation for the final time and let the installation complete.

Conclusion

Here we've made a step-by-step guide on How to manually install FAIR-biomed extension in 2 ways. We hope this guide proves helpful.

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User reviews

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Stephane Bourgeois (ID: 0000007dad72adc2) Voted 5 ★ - Updated 06/25/2020 Such a useful app, quickly finding information about a variant or gene without having to switch to countless sites to do the search saves valuable time. Highly recommended to anyone working in genomics.

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Aziz Khan (ID: 000000b77ed16d9b) Voted 5 ★ - Updated 10/31/2019 A super handy app to access biomedical info from open-data resources such as UniProt, PubMed, Reactome, JASPAR etc in single click.